Register training material
13 materials found

Authors: Jan Slifka  or Dave Clements 


Hands-on for 'From NCBI's Sequence Read Archive (SRA) to Galaxy: SARS-CoV-2 variant analysis' tutorial

The questions this addresses are:
- Learn how to get and use data from the Sequence Read Archive in Galaxy.

The objectives are:
- Understand how Galaxy and the Sequence Read Archive interact.
- Be able to go from Galaxy to the Short Reach Archive, query SRA, use the SRA Run Selector to send...

Scientific topics: Genetic variation

Keywords: variant-analysis, covid19

Resource type: hands-on tutorial

Hands-on for '16S Microbial Analysis with mothur (extended)' tutorial

The questions this addresses are:
- What is the effect of normal variation in the gut microbiome on host health?

The objectives are:
- Analyze of 16S rRNA sequencing data using the mothur toolsuite in Galaxy
- Using a mock community to assess the error rate of your sequencing experiment
-...

Scientific topics: Metagenomics

Keywords: metagenomics

Resource type: hands-on tutorial

Hands-on for '16S Microbial Analysis with mothur (short)' tutorial

The questions this addresses are:
- What is the effect of normal variation in the gut microbiome on host health?

The objectives are:
- Analyze of 16S rRNA sequencing data using the mothur toolsuite in Galaxy
- Using a mock community to assess the error rate of your sequencing experiment
-...

Scientific topics: Metagenomics

Keywords: metagenomics

Resource type: hands-on tutorial

Hands-on for 'Extracting Workflows from Histories' tutorial

The questions this addresses are:
- What is a workflow?
- How can I create a workflow based on my analysis history?

The objectives are:
- Learn how to extract a workflow from a Galaxy history
- Learn how to change a workflow using the workflow editor

Keywords: galaxy-interface, workflows

Resource type: hands-on tutorial

Hands-on for 'Introduction to Genomics and Galaxy' tutorial

The questions this addresses are:
- Do genes on opposite strands ever overlap? If so, how often?

The objectives are:
- Learn some of the basic concepts of genomics and bioinformatics
- Familiarize yourself with the basics of Galaxy

Keywords: introduction

Resource type: hands-on tutorial

Hands-on for 'NGS data logistics' tutorial

The questions this addresses are:
- How to manipulate and process NGS data

The objectives are:
- Understand most common types of NGS-related datatypes
- Learn about how Galaxy handles NGS data using Illumina data derived from patients infected with SARS-CoV-2

Keywords: introduction

Resource type: hands-on tutorial

Hands-on for 'Galaxy 101 for everyone' tutorial

The questions this addresses are:
- What are the differences between the Iris species?

The objectives are:
- Familiarize yourself with the basics of Galaxy
- Learn how to obtain data from external sources
- Learn how to tag datasets
- Learn how to run tools
- Learn how histories work
-...

Keywords: introduction

Resource type: hands-on tutorial

Slides for 'Getting data into Galaxy' tutorial

The questions this addresses are:
- How do I get my data into Galaxy?
- How do I get public data into Galaxy?

Keywords: galaxy-interface

Resource type: slides

Slides for 'Options for using Galaxy' tutorial

The questions this addresses are:
- Which Galaxy instance should I use?

Keywords: introduction

Resource type: slides

Introduction to 'Introduction to Galaxy Analyses'

Slides for Introduction to Galaxy Analyses

Resource type: slides

DS Wizard and its Use

This training gives an overview and explains what is the purpose of smart data management plans as living documents, core ideas behind Data Stewardship Wizard, and how to use it in practice. Furthermore, it shows the versability of DSW, its top-notch features that make...

Scientific topics: Data management

Keywords: DMP, DMP tools, data stewardship, FAIR, FAIR data

Resource type: Presentation

A Gentle Introduction to DSW for Convergers

Data Stewardship Wizard brings together data stewards and researchers to efficiently compose data management plans (DMPs) for their research projects. Data stewards capture their knowledge and expertise in so-called knowledge models that are turned into smart...

Scientific topics: Data management, Data governance

Keywords: Data managment plan, data stewardship, data management, software tools

Resource type: Video, Slides, Webinar

Data Stewardship Wizard Workshop (Feb 2020)

Data Stewardship Wizard brings together data stewards and researchers to allow managing data in projects efficiently and in a FAIR manner. Data stewards can easily capture the knowledge including required project data and decisions in knowledge models that are then turned into...

Scientific topics: Data governance, Data management

Keywords: Data management plan, data stewardship, FAIR, data management, software tools

Resource type: Video, Webinar, Slides